Towfique Raj - Publications

Neuroscience Icahn School of Medicine at Mount Sinai, New York, NY, United States 

36 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Snijders GJLJ, de Paiva Lopes K, Sneeboer MAM, Muller BZ, Gigase FAJ, Vialle RA, Missall R, Kubler R, Raj T, Humphrey J, de Witte LD. The human microglia responsome: a resource to better understand microglia states in health and disease. Biorxiv : the Preprint Server For Biology. PMID 37873223 DOI: 10.1101/2023.10.12.562067  0.644
2023 Fodder K, Murthy M, Rizzu P, Toomey CE, Hasan R, Humphrey J, Raj T, Lunnon K, Mill J, Heutink P, Lashley T, Bettencourt C. Brain DNA methylomic analysis of frontotemporal lobar degeneration reveals OTUD4 in shared dysregulated signatures across pathological subtypes. Acta Neuropathologica. PMID 37149835 DOI: 10.1007/s00401-023-02583-z  0.721
2022 Humphrey J, Venkatesh S, Hasan R, Herb JT, de Paiva Lopes K, Küçükali F, Byrska-Bishop M, Evani US, Narzisi G, Fagegaltier D, Sleegers K, Phatnani H, Knowles DA, Fratta P, Raj T. Integrative transcriptomic analysis of the amyotrophic lateral sclerosis spinal cord implicates glial activation and suggests new risk genes. Nature Neuroscience. PMID 36482247 DOI: 10.1038/s41593-022-01205-3  0.742
2022 Riboldi GM, Vialle RA, Navarro E, Udine E, de Paiva Lopes K, Humphrey J, Allan A, Parks M, Henderson B, Astudillo K, Argyrou C, Zhuang M, Sikder T, Oriol Narcis J, Kumar SD, ... ... Raj T, et al. Transcriptome deregulation of peripheral monocytes and whole blood in GBA-related Parkinson's disease. Molecular Neurodegeneration. 17: 52. PMID 35978378 DOI: 10.1186/s13024-022-00554-8  0.692
2022 Kosoy R, Fullard JF, Zeng B, Bendl J, Dong P, Rahman S, Kleopoulos SP, Shao Z, Girdhar K, Humphrey J, de Paiva Lopes K, Charney AW, Kopell BH, Raj T, Bennett D, et al. Genetics of the human microglia regulome refines Alzheimer's disease risk loci. Nature Genetics. 54: 1145-1154. PMID 35931864 DOI: 10.1038/s41588-022-01149-1  0.728
2022 Bowles KR, Pugh DA, Liu Y, Patel T, Renton AE, Bandres-Ciga S, Gan-Or Z, Heutink P, Siitonen A, Bertelsen S, Cherry JD, Karch CM, Frucht SJ, Kopell BH, Peter I, ... ... Raj T, et al. 17q21.31 sub-haplotypes underlying H1-associated risk for Parkinson's disease are associated with LRRC37A/2 expression in astrocytes. Molecular Neurodegeneration. 17: 48. PMID 35841044 DOI: 10.1186/s13024-022-00551-x  0.314
2022 Bellenguez C, Küçükali F, Jansen IE, Kleineidam L, Moreno-Grau S, Amin N, Naj AC, Campos-Martin R, Grenier-Boley B, Andrade V, Holmans PA, Boland A, Damotte V, van der Lee SJ, Costa MR, ... ... Raj T, et al. New insights into the genetic etiology of Alzheimer's disease and related dementias. Nature Genetics. PMID 35379992 DOI: 10.1038/s41588-022-01024-z  0.72
2022 Vialle RA, de Paiva Lopes K, Bennett DA, Crary JF, Raj T. Integrating whole-genome sequencing with multi-omic data reveals the impact of structural variants on gene regulation in the human brain. Nature Neuroscience. 25: 504-514. PMID 35288716 DOI: 10.1038/s41593-022-01031-7  0.374
2022 Brown AL, Wilkins OG, Keuss MJ, Hill SE, Zanovello M, Lee WC, Bampton A, Lee FCY, Masino L, Qi YA, Bryce-Smith S, Gatt A, Hallegger M, Fagegaltier D, Phatnani H, ... ... Raj T, et al. TDP-43 loss and ALS-risk SNPs drive mis-splicing and depletion of UNC13A. Nature. PMID 35197628 DOI: 10.1038/s41586-022-04436-3  0.761
2022 Lopes KP, Snijders GJL, Humphrey J, Allan A, Sneeboer MAM, Navarro E, Schilder BM, Vialle RA, Parks M, Missall R, van Zuiden W, Gigase FAJ, Kübler R, van Berlekom AB, Hicks EM, ... ... Raj T, et al. Genetic analysis of the human microglial transcriptome across brain regions, aging and disease pathologies. Nature Genetics. 54: 4-17. PMID 34992268 DOI: 10.1038/s41588-021-00976-y  0.732
2021 Navarro E, Udine E, de Paiva Lopes K, Parks M, Riboldi G, Schilder BM, Humphrey J, Snijders GJL, Vialle RA, Zhuang M, Sikder T, Argyrou C, Allan A, Chao MJ, Farrell K, ... ... Raj T, et al. Dysregulation of mitochondrial and proteolysosomal genes in Parkinson's disease myeloid cells. Nature Aging. 1: 850-863. PMID 35005630 DOI: 10.1038/s43587-021-00110-x  0.696
2021 Hasan R, Humphrey J, Bettencourt C, Newcombe J, Lashley T, Fratta P, Raj T. Transcriptomic analysis of frontotemporal lobar degeneration with TDP-43 pathology reveals cellular alterations across multiple brain regions. Acta Neuropathologica. PMID 34961893 DOI: 10.1007/s00401-021-02399-9  0.751
2021 Bowles KR, Pugh DA, Oja LM, Jadow BM, Farrell K, Whitney K, Sharma A, Cherry JD, Raj T, Pereira AC, Crary JF, Goate AM. Dysregulated coordination of MAPT exon 2 and exon 10 splicing underlies different tau pathologies in PSP and AD. Acta Neuropathologica. PMID 34874463 DOI: 10.1007/s00401-021-02392-2  0.31
2021 Schilder BM, Navarro E, Raj T. Multi-omic insights into Parkinson's Disease: From genetic associations to functional mechanisms. Neurobiology of Disease. 163: 105580. PMID 34871738 DOI: 10.1016/j.nbd.2021.105580  0.339
2021 Farrell K, Kim S, Han N, Iida MA, Gonzalez EM, Otero-Garcia M, Walker JM, Richardson TE, Renton AE, Andrews SJ, Fulton-Howard B, Humphrey J, Vialle RA, Bowles KR, de Paiva Lopes K, ... ... Raj T, et al. Genome-wide association study and functional validation implicates JADE1 in tauopathy. Acta Neuropathologica. PMID 34719765 DOI: 10.1007/s00401-021-02379-z  0.727
2021 Schilder BM, Raj T. Fine-mapping of Parkinson's disease susceptibility loci identifies putative causal variants. Human Molecular Genetics. PMID 34617105 DOI: 10.1093/hmg/ddab294  0.363
2021 Schilder BM, Humphrey J, Raj T. echolocatoR: an automated end-to-end statistical and functional genomic fine-mapping pipeline. Bioinformatics (Oxford, England). PMID 34529038 DOI: 10.1093/bioinformatics/btab658  0.655
2021 Bampton A, Gatt A, Humphrey J, Cappelli S, Bhattacharya D, Foti S, Brown AL, Asi Y, Low YH, Foiani M, Raj T, Buratti E, Fratta P, Lashley T. HnRNP K mislocalisation is a novel protein pathology of frontotemporal lobar degeneration and ageing and leads to cryptic splicing. Acta Neuropathologica. PMID 34274995 DOI: 10.1007/s00401-021-02340-0  0.723
2021 Moon C, Schilder BM, Raj T, Huang KL. Phenome-wide and eQTL Associations of COVID-19 Genetic Risk Loci. Iscience. 102550. PMID 34027315 DOI: 10.1016/j.isci.2021.102550  0.322
2020 Prudencio M, Humphrey J, Pickles S, Brown AL, Hill SE, Kachergus J, Shi J, Heckman M, Spiegel M, Cook C, Song Y, Yue M, Daughrity L, Carlomagno Y, Jansen-West K, ... ... Raj T, et al. Truncated stathmin-2 is a marker of TDP-43 pathology in frontotemporal dementia. The Journal of Clinical Investigation. PMID 32790644 DOI: 10.1172/Jci139741  0.75
2020 Ramdhani S, Navarro E, Udine E, Efthymiou AG, Schilder BM, Parks M, Goate A, Raj T. Tensor decomposition of stimulated monocyte and macrophage gene expression profiles identifies neurodegenerative disease-specific trans-eQTLs. Plos Genetics. 16: e1008549. PMID 32012164 DOI: 10.1371/Journal.Pgen.1008549  0.385
2019 Li YI, Wong G, Humphrey J, Raj T. Prioritizing Parkinson's disease genes using population-scale transcriptomic data. Nature Communications. 10: 994. PMID 30824768 DOI: 10.1038/s41467-019-08912-9  0.711
2018 Ye CJ, Chen J, Villani AC, Gate RE, Subramaniam M, Bhangale T, Lee MN, Raj T, Raychowdhury R, Li W, Rogel N, Simmons S, Imboywa SH, Chipendo PI, McCabe C, et al. Genetic analysis of isoform usage in the human anti-viral response reveals influenza-specific regulation of transcripts under balancing selection. Genome Research. PMID 30446528 DOI: 10.1101/Gr.240390.118  0.338
2018 Raj T, Li YI, Wong G, Humphrey J, Wang M, Ramdhani S, Wang YC, Ng B, Gupta I, Haroutunian V, Schadt EE, Young-Pearse T, Mostafavi S, Zhang B, Sklar P, et al. Integrative transcriptome analyses of the aging brain implicate altered splicing in Alzheimer's disease susceptibility. Nature Genetics. PMID 30297968 DOI: 10.1038/S41588-018-0238-1  0.742
2018 Hefti MM, Farrell K, Kim S, Bowles KR, Fowkes ME, Raj T, Crary JF. High-resolution temporal and regional mapping of MAPT expression and splicing in human brain development. Plos One. 13: e0195771. PMID 29634760 DOI: 10.1371/Journal.Pone.0195771  0.303
2017 Calderon D, Bhaskar A, Knowles DA, Golan D, Raj T, Fu AQ, Pritchard JK. Inferring Relevant Cell Types for Complex Traits by Using Single-Cell Gene Expression. American Journal of Human Genetics. PMID 29106824 DOI: 10.1016/J.Ajhg.2017.09.009  0.319
2017 Pimenova AA, Raj T, Goate AM. Untangling Genetic Risk for Alzheimer's Disease. Biological Psychiatry. PMID 28666525 DOI: 10.1016/J.Biopsych.2017.05.014  0.375
2017 Huang KL, Marcora E, Pimenova AA, Di Narzo AF, Kapoor M, Jin SC, Harari O, Bertelsen S, Fairfax BP, Czajkowski J, Chouraki V, Grenier-Boley B, Bellenguez C, Deming Y, McKenzie A, ... Raj T, et al. A common haplotype lowers PU.1 expression in myeloid cells and delays onset of Alzheimer's disease. Nature Neuroscience. PMID 28628103 DOI: 10.1038/Nn.4587  0.343
2015 Hohman TJ, Cooke-Bailey JN, Reitz C, Jun G, Naj A, Beecham GW, Liu Z, Carney RM, Vance JM, Cuccaro ML, Rajbhandary R, Vardarajan BN, Wang LS, Valladares O, Lin CF, ... ... Raj T, et al. Global and local ancestry in African-Americans: Implications for Alzheimer's disease risk. Alzheimer's & Dementia : the Journal of the Alzheimer's Association. PMID 26092349 DOI: 10.1016/J.Jalz.2015.02.012  0.31
2014 De Jager PL, Srivastava G, Lunnon K, Burgess J, Schalkwyk LC, Yu L, Eaton ML, Keenan BT, Ernst J, McCabe C, Tang A, Raj T, Replogle J, Brodeur W, Gabriel S, et al. Alzheimer's disease: early alterations in brain DNA methylation at ANK1, BIN1, RHBDF2 and other loci. Nature Neuroscience. 17: 1156-63. PMID 25129075 DOI: 10.1038/Nn.3786  0.326
2014 Raj T, Rothamel K, Mostafavi S, Ye C, Lee MN, Replogle JM, Feng T, Lee M, Asinovski N, Frohlich I, Imboywa S, Von Korff A, Okada Y, Patsopoulos NA, Davis S, et al. Polarization of the effects of autoimmune and neurodegenerative risk alleles in leukocytes. Science (New York, N.Y.). 344: 519-23. PMID 24786080 DOI: 10.1126/Science.1249547  0.322
2013 Stranger BE, Raj T. Genetics of human gene expression. Current Opinion in Genetics & Development. 23: 627-34. PMID 24238872 DOI: 10.1016/j.gde.2013.10.004  0.318
2013 Reitz C, Jun G, Naj A, Rajbhandary R, Vardarajan BN, Wang LS, Valladares O, Lin CF, Larson EB, Graff-Radford NR, Evans D, De Jager PL, Crane PK, Buxbaum JD, Murrell JR, ... Raj T, et al. Variants in the ATP-binding cassette transporter (ABCA7), apolipoprotein E ϵ4,and the risk of late-onset Alzheimer disease in African Americans. Jama. 309: 1483-92. PMID 23571587 DOI: 10.1001/Jama.2013.2973  0.36
2013 Raj T, Kuchroo M, Replogle JM, Raychaudhuri S, Stranger BE, De Jager PL. Common risk alleles for inflammatory diseases are targets of recent positive selection. American Journal of Human Genetics. 92: 517-29. PMID 23522783 DOI: 10.1016/J.Ajhg.2013.03.001  0.305
2012 Raj T, Shulman JM, Keenan BT, Chibnik LB, Evans DA, Bennett DA, Stranger BE, De Jager PL. Alzheimer disease susceptibility loci: evidence for a protein network under natural selection. American Journal of Human Genetics. 90: 720-6. PMID 22482808 DOI: 10.1016/J.Ajhg.2012.02.022  0.33
2012 Qutob N, Balloux F, Raj T, Liu H, Marion de Procé S, Trowsdale J, Manica A. Signatures of historical demography and pathogen richness on MHC class I genes. Immunogenetics. 64: 165-75. PMID 21947542 DOI: 10.1007/S00251-011-0576-Y  0.532
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